Acknowledgement
The authors thank the Directorate of Research and Community Service, Ministry of Research and Technology, and the National Research and Innovation Agency, Republic of Indonesia for providing a research grant through the Penelitian Dasar Unggulan Perguruan Tinggi (PDUPT) scheme (Number: 12/E1/KP. PTNBH/2022).
References
- Abdullah, A., Nurilmala, M., Jacoeb, A.M., Sitaresmi, K.P. 2019. Mini DNA-barcode as molecular marker for heavily processed hairtail fish products authentication. IOP Conference Series: Earth and Environmental Science 278: 012001.
- Abubakar, B.M., Salleh, F.M., Omar, M.S.S., Wagiran, A. 2018. Assessing product adulteration of Eurycoma longifolia (Tongkat ali) herbal medicinal product using DNA barcoding and HPLC analysis. Pharmaceutical Biology 56(1): 368-377. https://doi.org/10.1080/13880209.2018.1479869
- Ang, H.H., Hitotsuyanagi, Y., Takeya, K. 2000. Eurycolactones A-C, novel quassinoids from Eurycoma longifolia. Tetrahedron Letters 41(35): 6849-6853. https://doi.org/10.1016/S0040-4039(00)01159-X
- Bhat, R., Karim, A.A. 2010. Tongkat ali (Eurycoma longifolia Jack): A review on its ethnobotany and pharmacological importance. Fitoterapia 81(7): 669-679. https://doi.org/10.1016/j.fitote.2010.04.006
- Chen, S., Yao, H., Han, J., Liu, C., Song, J., Shi, L., Zhu, Y., Ma, X., Gao, T., Pang, X., Luo, K., Li, Y., Li, X., Jia, X., Lin, Y., Leon, C. 2010. Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species. PLOS ONE 5(1): e8613.
- Choi, E.M., Hwang, J.K. 2005. Screening of Indonesian medicinal plants for inhibitor activity on nitric oxide production of RAW264.7 cells and antioxidant activity. Fitoterapia 76(2): 194-203. https://doi.org/10.1016/j.fitote.2004.11.010
- Chua, L.S.L., Kamarudin, S., Markandan, M., Hamidah, M. 2005. A preliminary checklist of vascular plants from the Machinchang range, Pulau Langkawi, Peninsular Malaysia. Malayan Nature Journal 57(2): 155-172.
- Coutinho Moraes, D.F., Still, D.W., Lum, M.R., Hirsch, A.M. 2015. DNA-based authentication of botanicals and plant-derived dietary supplements: Where have we been and where are we going? Planta Medica 81(09): 687-695. https://doi.org/10.1055/s-0035-1545843
- de Groot, G.A., During, H.J., Maas, J.W., Schneider, H., Vogel, J.C., Erkens, R.H.J. 2011. Use of rbcL and trnL-F as a two-locus DNA barcode for identification of NW-European ferns: An ecological perspective. PLOS ONE 6(1): e16371.
- Devecchi, M.F., Thomas, W.W., Plunkett, G.M., Pirani, J.R. 2018. Testing the monophyly of Simaba (Simaroubaceae): Evidence from five molecular regions and morphology. Molecular Phylogenetics and Evolution 120: 63-82. https://doi.org/10.1016/j.ympev.2017.11.024
- Dilley, K., Chapman, B. 2019. Optimising silica-based solid phase DNA extraction methods for low concentration forensic samples. Ph.D. Thesis, Murdoch University, Australia.
- Elkordy, A.A., Haj-Ahmad, R.R., Awaad, A.S., Zaki, R.M. 2021. An overview on natural product drug formulations from conventional medicines to nanomedicines: Past, present and future. Journal of Drug Delivery Science and Technology 63: 102459.
- Evans Schultes, R. 1980. Medicinal plants of East and Southeast Asia: Attributed properties. Economic Botany 34(4): 361.
- Fadzil, N.F., Wagiran, A., Salleh, F.M., Abdullah, S., Izham, N.H.M. 2018. Authenticity testing and detection of Eurycoma longifolia in commercial herbal products using bar-high resolution melting analysis. Genes 9(8): 408.
- Fatima, T., Srivastava, A., Hanur, V.S., Rao, M.S. 2018. An effective wood DNA extraction protocol for three economic important timber species of India. American Journal of Plant Sciences 9(2): 139-149. https://doi.org/10.4236/ajps.2018.92012
- Finkeldey, R., Leinemann, L., Gailing, O. 2010. Molecular genetic tools to infer the origin of forest plants and wood. Applied Microbiology and Biotechnology 85(5): 1251-1258. https://doi.org/10.1007/s00253-009-2328-6
- Ganie, S.H., Upadhyay, P., Das, S., Prasad Sharma, M. 2015. Authentication of medicinal plants by DNA markers. Plant Gene 4: 83-99. https://doi.org/10.1016/j.plgene.2015.10.002
- Gao, T., Yao, H., Song, J., Liu, C., Zhu, Y., Ma, X., Pang, X., Xu, H., Chen, S. 2010. Identification of medicinal plants in the family Fabaceae using a potential DNA barcode ITS2. Journal of Ethnopharmacology 130(1): 116-121. https://doi.org/10.1016/j.jep.2010.04.026
- Gautam, P., Pandey, A.K., Gupta, A., Dubey, S.K. 2023. Microcosm-omics centric investigation reveals elevated bacterial degradation of imidacloprid. Environmental Pollution 324: 121402.
- Han, J., Pang, X., Liao, B., Yao, H., Song, J., Chen, S. 2016. An authenticity survey of herbal medicines from markets in China using DNA barcoding. Scientific Reports 6(1): 1-9. https://doi.org/10.1038/s41598-016-0001-8
- He, Y., Hou, P., Fan, G., Song, Z., Arain, S., Shu, H., Tang, C., Yue, Q., Zhang, Y. 2012. Authentication of Angelica anomala Ave-Lall cultivars through DNA barcodes. Mitochondrial DNA 23(2): 100-105. https://doi.org/10.3109/19401736.2012.660924
- Howard, C., Hill, E., Kreuzer, M., Mali, P., Masiero, E., Slater, A., Sgamma, T. 2019. DNA authentication of St John's wort (Hypericum perforatum L.) commercial products targeting the ITS region. Genes 10(4): 1-20. https://doi.org/10.3390/genes10040286
- Huelsenbeck, J.P., Ronquist, F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17(8): 754-755. https://doi.org/10.1093/bioinformatics/17.8.754
- Insuasti-Cruz, E., Suarez-Jaramillo, V., Mena Urresta, K.A., Pila-Varela, K.O., Fiallos-Ayala, X., Dahoumane, S.A., Alexis, F. 2022. Natural biomaterials from biodiversity for healthcare applications. Advanced Healthcare Materials 11(1): 2101389.
- Jung, J., Kim, K.H., Yang, K., Bang, K.H., Yang, T.J. 2014. Practical application of DNA markers for high-throughput authentication of Panax ginseng and Panax quinquefolius from commercial ginseng products. Journal of Ginseng Research 38(2): 123-129. https://doi.org/10.1016/j.jgr.2013.11.017
- Kassim, A.R., Niiyama, K., Ripin, A., Appanah, S., Iida, S. 2002. Species assembly and site preference of tree species in a primary seraya-ridge forest of peninsular Malaysia. Journal of Tropical Forest Science 14: 287-303.
- Kumar, S., Stecher, G., Tamura, K. 2016. MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets. Molecular Biology and Evolution 33(7): 1870-1874. https://doi.org/10.1093/molbev/msw054
- Kuo, P.C., Damu, A.G., Lee, K.H., Wu, T.S. 2004. Cytotoxic and antimalarial constituents from the roots of Eurycoma longifolia. Bioorganic & Medicinal Chemistry 12(3): 537-544. https://doi.org/10.1016/j.bmc.2003.11.017
- Lee, S.Y., Lamasudin, D.U., Mohamed, R. 2019. Rapid detection of several endangered agarwood-producing Aquilaria species and their potential adulterants using plant DNA barcodes coupled with high-resolution melting (Bar-HRM) analysis. Holzforschung 73(5): 435-444. https://doi.org/10.1515/hf-2018-0149
- Li, C.H., Liao, J.W., Liao, P.L., Huang, W.K., Tse, L.S., Lin, C.H., Kang, J.J., Cheng, Y.W. 2013. Evaluation of acute 13-week subchronic toxicity and genotoxicity of the powdered root of Tongkat ali (Eurycoma longifolia Jack). Evidence-based Complementary and Alternative Medicine 2013(1): 102987.
- Li, N., Shen, Q., Wang, J., Han, C., Ji, R., Li, F., Jiang, T. 2015. Tetrodotoxin detection and species identification of pufferfish in retail roasted fish fillet by DNA barcoding in China. Food Additives & Contaminants: Part A 32(12): 2148-2153. https://doi.org/10.1080/19440049.2015.1087056
- Liang, H. 2020. Evolutionary and ecological processes influence a plant-bumble bee network. https://doi.org/10.5061/dryad.sf7m0cg34
- Liepelt, S., Sperisen, C., Deguilloux, M.F., Petit, R.J., Kissling, R., Spencer, M., De Beaulieu, J.L., Taberlet, P., Gielly, L., Ziegenhagen, B. 2006. Authenticated DNA from ancient wood remains. Annals of Botany 98(5): 1107-1111. https://doi.org/10.1093/aob/mcl188
- Liow, H.L., Ahmad Tarmizi, A.A., Jahari, P.N.S., Ihsan, N., Mohd Salleh, F. 2021. DNA barcoding for authentication of Orthosiphon stamineus herbal medicinal product using ITS2 nuclear marker originating from Malaysia. IOP Conference Series: Earth and Environmental Science 736: 012034.
- Little, D.P. 2014. Authentication of Ginkgo biloba herbal dietary supplements using DNA barcoding. Genome 57: 513-516. https://doi.org/10.1139/gen-2014-0130
- Little, D.P., Jeanson, M.L. 2013. DNA barcode authentication of saw palmetto herbal dietary supplements. Scientific Reports 3(1): 1-6. https://doi.org/10.1038/srep03518
- Mahfudh, N., Pihie, A.H.L. 2008. Eurycomanone induces apoptosis through the up-regulation of p53 in human cervical carcinoma cells. Journal of Cancer Molecules 4(4): 109-115.
- McDonald, C.M., Keeling, S.E., Brewer, M.J., Hathaway, S.C. 2018. Using chemical and DNA marker analysis to authenticate a high-value food, manuka honey. npj Science of Food 2(1):9.
- Miyake, K., Tezuka, Y., Awale, S., Li, F., Kadota, S. 2009. Quassinoids from Eurycoma longifolia. Journal of Natural Products 72(12): 2135-2140. https://doi.org/10.1021/np900486f
- Mohammed Abubakar, B., Mohd Salleh, F., Shamsir Omar, M.S., Wagiran, A. 2017. Review: DNA barcoding and chromatography fingerprints for the authentication of botanicals in herbal medicinal products. Evidence-based Complementary and Alternative Medicine 2017(1): 1352948.
- Moller, M., Cronk, Q.C.B. 1997. Origin and relationships of Saintpaulia (Gesneriaceae) based on ribosomal DNA internal transcribed spacer (ITS) sequences. American Journal of Botany 84(7): 956-965. https://doi.org/10.2307/2446286
- Muellner-Riehl, A.N., Weeks, A., Clayton, J.W., Buerki, S., Nauheimer, L., Chiang, Y.C., Cody, S., Pell, S.K. 2016. Molecular phylogenetics and molecular clock dating of Sapindales based on plastid rbcL, atpB and trnL-trnF DNA sequences. Taxon 65(5): 1019-1036. https://doi.org/10.12705/655.5
- Newmaster, S.G., Grguric, M., Shanmughanandhan, D., Ramalingam, S., Ragupathy, S. 2013. DNA barcoding detects contamination and substitution in North American herbal products. BMC Medicine 11: 222.
- Ng, W.L., Lee, S.Y., Yeap, S.K. 2019. Characterization of the complete chloroplast genome of an important Southeast Asian medicinal plant, Eurycoma longifolia (Simaroubaceae). Mitochondrial DNA Part B: Resources 4(1): 128-129. https://doi.org/10.1080/23802359.2018.1540263
- Noh, P., Kim, W.J., Yang, S., Park, I., Moon, B.C. 2018. Authentication of the herbal medicine angelicae dahuricae radix using an its sequence-based multiplex scar assay. Molecules 23(9): 2134.
- Nyakudya, T.T., Tshabalala, T., Dangarembizi, R., Erlwanger, K.H., Ndhlala, A.R. 2020. The potential therapeutic value of medicinal plants in the management of metabolic disorders. Molecules 25(11): 1-20. https://doi.org/10.3390/molecules25112669
- Olivar, J.E.C., Alaba, J.P.E.P., Atienza, J.F.M., Tan, J.J.S., Umali, M.T., Alejandro, G.J.D. 2016. Establishment of a standard reference material (SRM) herbal DNA barcode library of Vitex negundo L. (lagundi) for quality control measures. Food Additives & Contaminants: Part A 33(5): 741-748. https://doi.org/10.1080/19440049.2016.1166525
- Pasaribu, G., Winarni, I., Gusti, R.E.P., Maharani, R., Fernandes, A., Harianja, A.H., Saragih, G.S., Turjaman, M., Tampubolon, A.P., Kuspradini, H., Lukmandaru, G., Njurumana, G.N., Sukito, A., Aswandi, A., Kholibrina, C.R. 2021. Current challenges and prospects of Indonesian non-timber forest products (NTFPs): A review. Forests 12(12): 1743.
- Pelser, P.B., Kennedy, A.H., Tepe, E.J., Shidler, J.B., Nordenstam, B., Kadereit, J.W., Watson, L.E. 2010. Patterns and causes of incongruence between plastid and nuclear Senecioneae (Asteraceae) phylogenies. American Journal of Botany 97(5): 856-873. https://doi.org/10.3732/ajb.0900287
- Psifidi, A., Dovas, C.I., Bramis, G., Lazou, T., Russel, C.L., Arsenos, G., Banos, G. 2015. Comparison of eleven methods for genomic DNA extraction suitable for large-scale whole-genome genotyping and long-term DNA banking using blood samples. PLOS ONE 10(1): 1-18. https://doi.org/10.1371/journal.pone.0115960
- Rachmat, H.H., Yulita, K.S., Dwiyanti, F.G., Susilowati, A., Arrofaha, N., Susila, Kamal, I., Siregar, I.Z. 2024. Optimizing DNA extraction and selecting suitable regions for biodiversity assessment: A study on Shorea leprosula. Jurnal Manajemen Hutan Tropika 30(1): 144-154. https://doi.org/10.7226/jtfm.30.1.144
- Rachmayanti, Y., Leinemann, L., Gailing, O., Finkeldey, R. 2006. Extraction, amplification and characterization of wood DNA from Dipterocarpaceae. Plant Molecular Biology Reporter 24(1): 45-55. https://doi.org/10.1007/BF02914045
- Satheeshkumar, N., Paul, D., Lingesh, A. 2016. Liquid Chromatography-Mass Spectrometry (LC-MS): Approaches to Adulterant Detection in Herbal Products. In: Medicinal Plants: Recent Advances in Research and Development, Ed. by Tsay, H.S., Shyur, L.F., Agrawal, D.C., Wu, Y.C., and Wang, S.Y. Springer, Singapore. pp. 73-95
- Sihotang, V.B.L., Rahmawati, K. 2019. The politics of stake collection and trading business of pasak bumi: The strategy of Alam Lestari Trading Business and community of pasak bumi collectors in Bahorok District, North Sumatra. In: Bogor, Indonesia, Proceedings of the National Seminar on Conservation and Utilization of Wild Plants and Animals: Research as the Foundation for the Conservation and Sustainable Use of Wild Plants and Animals.
- Soares, S., Amaral, J.S., Oliveira, M.B.P.P., Mafra, I. 2017. A comprehensive review on the main honey authentication issues: Production and origin. Comprehensive Reviews in Food Science and Food Safety 16(5): 1072-1100. https://doi.org/10.1111/1541-4337.12278
- Song, Y., Zhang, Y., Xu, J., Li, W., Li, M. 2019. Characterization of the complete chloroplast genome sequence of Dalbergia species and its phylogenetic implications. Scientific Reports 9(1): 20401.
- Susilowati, A., Rachmat, H.H., Yulita, K.S., Elfiati, D., Ginting, I.M. 2021. Distribution and association pattern of pasak bumi (Eurycoma longifolia) in Batang Lubu Sutam District, Padang Lawas, North Sumatra. IOP Conference Series: Earth and Environmental Science 912(1): 1-7. https://doi.org/10.1088/1755-1315/912/1/012056
- Suwardi, A.B., Navia, Z.I., Harmawan, T., Syamsuardi, S., Mukhtar, E. 2022. Importance and local conservation of wild edible fruit plants in the east Aceh Region, Indonesia. International Journal of Conservation Science 13(1): 221-232.
- Swetha, V.P., Parvathy, V.A., Sheeja, T.E., Sasikumar, B. 2014. Isolation and amplification of genomic DNA from barks of Cinnamomum spp. Turkish Journal of Biology 38(1): 151-155. https://doi.org/10.3906/biy-1308-5
- Taberlet, P., Gielly, L., Pautou, G., Bouvet, J. 1991. Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Molecular Biology 17(5): 1105-1109. https://doi.org/10.1007/BF00037152
- Tang, N., Li, Y., Yao, S., Hu, J., Zhao, Y., Fu, S., Song, Y., Wang, C., Zhang, G., Wei, D., Li, C., Jia, R., Feng, J. 2023. Epidemicity and clonal replacement of hypervirulent carbapenem-resistant Klebsiella pneumoniae with diverse pathotypes and resistance profiles in a hospital. Journal of Global Antimicrobial Resistance 32: 4-10. https://doi.org/10.1016/j.jgar.2022.11.007
- Theodoridis, S., Drakou, E.G., Hickler, T., Thines, M., Nogues-Bravo, D. 2023. Evaluating natural medicinal resources and their exposure to global change. The Lancet Planetary Health 7(2): E155-E163. https://doi.org/10.1016/S2542-5196(22)00317-5
- Thornhill, A.H., Baldwin, B.G., Freyman, W.A., Nosratinia, S., Kling, M.M., Morueta-Holme, N., Madsen, T.P., Ackerly, D.D., Mishler, B.D. 2017. Spatial phylogenetics of the native California flora. BMC Biology 15(1): 1-18. https://doi.org/10.1186/s12915-016-0343-5
- Tran, T.V.A., Malainer, C., Schwaiger, S., Atanasov, A.G., Heiss, E.H., Dirsch, V.M., Stuppner, H. 2014. NF-κB inhibitors from Eurycoma longifolia. Journal of Natural Products 77(3): 483-488. https://doi.org/10.1021/np400701k
- Vejayan, J., Mohamed, A.N., Zulkifli, A.A., Yahya, Y.A.C., Munir, N., Yusoff, M.M. 2018. Marker to authenticate Eurycoma longifolia (Tongkat ali) containing aphrodisiac herbal products. Current Science 115(5): 886-894. https://doi.org/10.18520/cs/v115/i5/886-894
- Verbylaite, R., Beisys, P., Rimas, V., Kuusiene, S. 2010. Comparison of ten DNA extraction protocols from wood of European aspen (Populus tremula L.). Baltic Forestry 16(1): 35-42.
- Verpoorte, R., Choi, Y.H., Mustafa, N.R., Kim, H.K. 2008. Metabolomics: Back to basics. Phytochemistry Reviews 7(3): 525-537. https://doi.org/10.1007/s11101-008-9091-7
- Vijayan, K., Tsou, C.H. 2010. DNA barcoding in plants: Taxonomy in a new perspective. Current Science 99(11): 1530-1541.
- Zahra, N.B., Shinwari, Z.K., Qaiser, M. 2016. DNA barcoding: A tool for standardization of herbal medicinal products (HMPs) of Lamiaceae from Pakistan. Pakistan Journal of Botany 48(5): 2167-2174.
- Zhao, X., Pang, S., Shan, T., Liu, F. 2013. Applications of three DNA barcodes in assorting intertidal red macroalgal flora in Qingdao, China. Journal of Ocean University of China 12(1): 139-145. https://doi.org/10.1007/s11802-013-2052-9
- Zhou, F., Lan, K., Li, X., Mei, Y., Cai, S., Wang, J. 2021. The complete chloroplast genome sequence of Vernonia amygdalina Delile. Mitochondrial DNA Part B 6(3): 1134-1135. https://doi.org/10.1080/23802359.2021.1902411